SMTL ID : 8dt3.1

Cryo-EM structure of spike binding to Fab of neutralizing antibody (locally refined)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-mer

Ligands

1 x NAG- NAG- FUC: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-FUC.1: 12 residues within 4Å: Chain A: F.338, F.342, N.343, L.368 Chain B: R.98, F.100, D.109, Y.110 Chain C: Y.49, R.53, L.54, H.55 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain C Hydrophobic interactions: B:F.100, B:D.109 Hydrogen bonds: B:R.98, B:D.109, B:Y.110, C:H.55

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fang, Y. et al., An antibody that neutralizes SARS-CoV-1 and SARS-CoV-2 by binding to a conserved spike epitope outside the receptor binding motif. Sci Immunol (2022)

Release Date

2022-08-03

Peptides

Spike glycoprotein: A
Heavy chain Fab of SW186: B
Light chain Fab of SW186: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
H

C
L

Spike glycoprotein

Heavy chain Fab of SW186

Light chain Fab of SW186